Difference between revisions of "Jan 12"
| Line 5: | Line 5: | ||
0.1g samples of frozen tissue were shaved off | 0.1g samples of frozen tissue were shaved off | ||
| − | + | -possibility for the tissue to not have been representative | |
| − | + | -yielded 100 ug RNA | |
| − | + | -need 10 ug for amplification | |
Isolate only mRNA to use to create cDNA | Isolate only mRNA to use to create cDNA | ||
| − | + | -beads used to isolate mRNA were covered in poly-T tails | |
| − | + | -beads were also magnetic | |
| − | + | -isolates 2% of RNA | |
removed from bead and mixed with Reverse Transcriptase (RT), dNTP's, and made cDNA | removed from bead and mixed with Reverse Transcriptase (RT), dNTP's, and made cDNA | ||
Revision as of 19:53, 12 January 2016
6 snakes 3 fed/3 unfed
Flash-fozen in dry ice and ethanol to preserve RNA
0.1g samples of frozen tissue were shaved off -possibility for the tissue to not have been representative -yielded 100 ug RNA -need 10 ug for amplification
Isolate only mRNA to use to create cDNA -beads used to isolate mRNA were covered in poly-T tails -beads were also magnetic -isolates 2% of RNA
removed from bead and mixed with Reverse Transcriptase (RT), dNTP's, and made cDNA
RNA fragmentation - normally want to avoid fragmenting RNA BUT: High-throughput sequencing only produces 75 bp reads
Fragmentation allows for more coverage in sequencing
Now need to prime RNA for sequencing BUT every the RNA has been fragmented Create a library of primers that contain bar code regions (3 nucleotides) and randomly generated hexameters
Purified PCR product was run on a gel. Fragment of about 500 bp was excised and reamplified to confirm data.
These fragments were then used to produce the RNA seq data.
